Sequence
atgc intronic sequence ATGC exonic sequencegtactttatatttggttacacttacatcttacttgaatctgtagccttgtttttctgcttgaagtaggattttctggtagtatatagtcttgatttgtgtctttaactaaacaaatttttgtggttgattattcagGCAAGGAAGACATCCTTTGGCTTTGGTTTTGGCTCCGACTAGAGAACTTGCGCGGCAGGTTGAGAAGGAATTCAATGAGGCTGCACCTAACTTGGCCATG
Basic information
species | Glycine max |
transcript | GLYMA08G41510.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G41510.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G407382_T02 (Zea mays), 3'ss of exon 2
gtactttatatttggttacacttacatcttacttgaatctgtagccttgtttttctgcttgaagtaggattttctggtagtatatagtcttgatttgtgtctttaactaaacaaatttttgtggttgattattcagGCAAGGAAGACATCCTTTGGCTTTGGTTTTGGCTCCGACTAGAGAACTTGCGCGGCAGGTTGAGAAGGAATTCAATGAGGCTGCACCTAACTTGGCCATG------------
| |||| ||| | || | ||| | | ||| || || | | | || || || | | | || ||| || || ||||||| || | | ||||| || || ||||||||||| |||||||||||||||||||| | || |||| || ||||| ||
--------------------------------------------gttcgtttctctttcacatgtggaattcttttaatttatctaccagggagatataa-tatattgtaataattgcatagtacgaagcatgcagatttggcagGAATCCTTTAGCCATAATCTTGGCACCAACAAGAGAACTTGCTCGGCAGGTTGAGAAGGAATTTAGAGAATCTGCTCC---CTTGGACACCCTCTGTGTATAT
upper sequence: GLYMA08G41510.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G407382_T01 (Zea mays), 3'ss of exon 2
gtactttatatttggttacacttacatcttacttgaatctgtagccttgtttttctgcttgaagtaggattttctggtagtatatagtcttgatttgtgtctttaactaaacaaatttttgtggttgattattcagGCAAGGAAGACATCCTTTGGCTTTGGTTTTGGCTCCGACTAGAGAACTTGCGCGGCAGGTTGAGAAGGAATTCAATGAGGCTGCACCTAACTTGGCCATG---
| |||| ||| | || | ||| | | ||| || || | | | || || || | | | || ||| || || ||||||| || | | ||||| || || ||||||||||| |||||||||||||||||||| | || |||| || ||||| ||
--------------------------------------------gttcgtttctctttcacatgtggaattcttttaatttatctaccagggagatataa-tatattgtaataattgcatagtacgaagcatgcagATTTGGCAGGAATCCTTTAGCCATAATCTTGGCACCAACAAGAGAACTTGCTCGGCAGGTTGAGAAGGAATTTAGAGAATCTGCTCC---CTTGGACACCCTC
upper sequence: GLYMA08G41510.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G080512_T01 (Zea mays), 3'ss of exon 2
gtactttatatttggttacacttacatcttacttgaatctgtagccttgtttttctgcttgaagtaggattttctggtagtatatagtcttgatttgtgtctttaactaaacaaatttttgtggttgat-tattcagGCAAGGAAGACATCCTTTGGCTTTGGTTTTGGCTCCGACTAGAGAACTTGCGCGGCAGGTTGAGAAGGAATTCAATGAGGCTGCACCTAACTTGGCCATG---
| |||| ||| | || | ||| | | || | ||| | | | | | | | |||| | ||| || ||| | || || ||||||| || | | ||||| || || ||||||||||| ||||||||||||||||| || | || |||| || ||||| ||
--------------------------------------------gttcgtttctctttcacatgtggaattcttt--taatttatctaccagggagatagaatatattgtaataattgcatagtacgatgcatgcagAAATGGCAGGAATCCTTTAGCCATAATCTTGGCACCAACAAGAGAACTTGCTCGGCAGGTTGAGAAGGAGTTTAGAGAATCTGCTCC---CTTGGACACCCTC
upper sequence: GLYMA08G41510.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G22330.1 (Arabidopsis thaliana), 3'ss of exon 2
gtactttatatttggttacacttacatcttacttgaatctgtagccttgtttttctgcttgaagtaggattttctggtagtatatagtcttgatttgtgtctttaactaaacaaatttttgtggttgattattc---agGCAAGGAAGACATCCTTTGGCTTTGGTTTTGGCTCCGACTAGAGAACTTGCGCGGCAGGTTGAGAAGGAATTCAATGAGGCTGCACCTAACTTGGCCATG
| | ||| ||| | | | | || | | ||| | | || || || | | | | ||| ||||||| | || || | ||| || |||| | |||||||||||| ||||| ||||| ||||| || |||||||||||||| || | ||| |||| || | ||||| |
-------------------------------------------gtttgtgtttactgagtcatttgaggttcag-agaattatgtt-ttctggttggtttactgatttttggggttttatgtggtttttgatgtgatagACGAGGGAGGAATCCGCTTTGTTTGGTTTTGGCACCGACAAGAGAGCTTGCTCGCCAGGTTGAGAAGGAGTTTAGGGAGTCTGCTCCGAGCTTGGATACT
upper sequence: GLYMA08G41510.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv12s0142g00670.t01 (Vitis vinifera), 3'ss of exon 2
---------------------gtactttatat-ttggtt--acacttacatcttacttgaatctgtagccttgtttttctgct-tgaagtaggattttctggtagtatatagtcttgatttgtgtctttaactaaacaaatttttgtggttgat-tattcagGCAAGGAAGACATCCTTTGGCTTTGGTTTTGGCTCCGACTAGAGAACTTGCGCGGCAGGTTGAGAAGGAATTCAATGAGGCTGCACCTAACTTGGCCATG
|||| || |||||| | |||| | || || | | | | ||||| | | || | | | | | | | | ||| | | | | || | || | ||||| || || | | ||| | || || |||| ||||| |||||||||||||| || ||||||||||| ||||| || |||||||||||| ||| |||| || || |||| |
gtttgtttgtttactccagtaacacttgatccattggttcaatttttaccttttctttttgaagattgattatgtgttctgttataaaatggaacaggacatcaatgca-atttttggtctttattattggcataatat-tttttatgttttgtacaaacagACGTGGGAGGAATCCGTTGGCCTTGGTTTTGGCTCCAACAAGAGAACTTGCACGGCAAGTGGAGAAGGAATTCTGTGAATCTGCCCCCAATTTGGATACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatagtcttgatttgtgtctttaactaaacaaatttttgtggttgattattcagGCAAGGAAGACATCCTTTGGCTTTGGTTTTGGCTCCGACTAGAGAACTTGCGCGGCAGGTTGAGAAGGAATTCAATGAGGCTGCACCTAACTTGGCCATG
tctttaactaaacaaa TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactttatatttggttacacttacatcttacttgaatctgtagccttgtttttctgcttgaagtaggattttctggtagtatatagtcttgatttgtgtctttaactaaacaaatttttgtggttgattattcagGCAAGGAAGACATCCTTTGGCTTTGGTTTTGGCTCCGACTAGAGAACTTGCGCGGCAGGTTGAGAAGGAATTCAATGAGGCTGCACCTAACTTGGCCATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA